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dc.contributor.authorMarondedze, Claudius
dc.contributor.authorThomas, Ludivine
dc.contributor.authorSerano, Natalia Lorena Gorron
dc.contributor.authorLilley, Kathryn S.
dc.contributor.authorGehring, Christoph A
dc.date.accessioned2016-07-20T12:35:07Z
dc.date.available2016-07-20T12:35:07Z
dc.date.issued2016-07-11
dc.identifier.citationThe RNA-binding protein repertoire of Arabidopsis thaliana 2016, 6:29766 Scientific Reports
dc.identifier.issn2045-2322
dc.identifier.pmid27405932
dc.identifier.doi10.1038/srep29766
dc.identifier.urihttp://hdl.handle.net/10754/617258
dc.description.abstractRNA-binding proteins (RBPs) have essential roles in determining the fate of RNA from synthesis to decay and have been studied on a protein-by-protein basis, or computationally based on a number of well-characterised RNA-binding domains. Recently, high-throughput methods enabled the capture of mammalian RNA-binding proteomes. To gain insight into the role of Arabidopsis thaliana RBPs at the systems level, we have employed interactome capture techniques using cells from different ecotypes grown in cultures and leaves. In vivo UV-crosslinking of RNA to RBPs, oligo(dT) capture and mass spectrometry yielded 1,145 different proteins including 550 RBPs that either belong to the functional category ‘RNA-binding’, have known RNA-binding domains or have orthologs identified in mammals, C. elegans, or S. cerevisiae in addition to 595 novel candidate RBPs. We noted specific subsets of RBPs in cultured cells and leaves and a comparison of Arabidopsis, mammalian, C. elegans, and S. cerevisiae RBPs reveals a common set of proteins with a role in intermediate metabolism, as well as distinct differences suggesting that RBPs are also species and tissue specific. This study provides a foundation for studies that will advance our understanding of the biological significance of RBPs in plant developmental and stimulus specific responses.
dc.description.sponsorshipThe research was funded by the Office of Competitive Research Grant Program, grant number CRG3-62140383 from King Abdullah University of Science and Technology (KAUST). The authors would like to thank Dr. Harriet Parsons, Cambridge Centre for Proteomics (CCP), University of Cambridge for providing the Landsberg erecta cell suspension culture, Dr. Huoming Zhang, Bioscience Core laboratory at KAUST and Dr. Mike Deery at CCP, University of Cambridge for their assistance with Mass spectrometry.
dc.language.isoen
dc.publisherSpringer Nature
dc.relation.urlhttp://www.nature.com/articles/srep29766
dc.rightsThis work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/
dc.titleThe RNA-binding protein repertoire of Arabidopsis thaliana
dc.typeArticle
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
dc.contributor.departmentBioscience Core Lab
dc.contributor.departmentBioscience Core Laboratory
dc.contributor.departmentBioscience Program
dc.contributor.departmentComputational Bioscience Research Center (CBRC)
dc.identifier.journalScientific Reports
dc.eprint.versionPublisher's Version/PDF
dc.contributor.institutionCambridge Centre for Proteomics, Cambridge Systems Biology Centre, and Department of Biochemistry, University of Cambridge, Tennis Court Road, Cambridge CB2 1GA, UK
dc.contributor.institutionHM.Clause, rue Louis Saillant, Z.I. La Motte, BP83, 26802 Portes-lès-Valence cédex, France.
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)
kaust.personThomas, Ludivine
kaust.personSerano, Natalia Lorena Gorron
kaust.personGehring, Christoph A.
kaust.grant.numberCRG3-62140383
refterms.dateFOA2018-06-13T13:03:35Z
kaust.acknowledged.supportUnitOffice of Competitive Research
dc.date.published-online2016-07-11
dc.date.published-print2016-09


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